It is shown that the origin of Kobayashi-Maskawa phase can be understood by spontaneous CP violation in E6 GUT with family symmetry and moreover, it can solve the SUSY CP problem, especially the strong constraint for the effective SUSY type sfermion mass spectrum from CEDM can be satisfied in a non-trivial way. The naive problem for massless mu neutrino can be solved by considering the higher dimensional operators which are allowed by the symmetry. As the result, realistic neutrino masses iand mixings including large theta13 can be obtained. In the end of this talk, we will comment on the 125 GeV Higgs for this scenario.